Sequence
atgc intronic sequence ATGC exonic sequence...cagtaacgccagtttaccaagttattagcagattgctgttattaacatctaatgtttgcttctttttacattactgaattatgtggctagcttaatgcagTAAAGGAAAAAATGGGCACATTCCATTCAGAGATTCAAAGCTGACACGCATACTTCAGACTTCCTTGGGAGGAAACGCCAGAACTTCCATAATCTGCACA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G51150.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G51150.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os08g43400.4 (Oryza sativa), 3'ss of exon 8
cagtaacgccagtttaccaagttattagcagattgctgttattaacatctaatgt-ttgcttctttttacatta--ctgaattatgtggctagcttaatgcagTAAAGGAAAAAATGGGCACATTCCATTCAGAGATTCAAAGCTGACACGCATACTTCAGACTTCCTTGGGAGGAAACGCCAGAACTTCCATAATCTGCACA
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tggatgaactaattttgaattccttttgcgcgtcgcaattcaactctttgattgcattattaccatccaatttagtctaagctatatgttca---tgttgcagTAAGGGAAGAAATGGCCATATCCCCTACAGAGATTCAAAGCTGACTCGTATATTACAGTCTTCCTTGGGAGGCAATGCAAGAACTGCTATTATCTGCACA
upper sequence: AT3G51150.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA16G24250.1 (Glycine max), 3'ss of exon 8
cagtaacgccagtttaccaagt-tattagca-gattgctgtt--attaacatctaatgtttgcttcttttt-acattactgaattatgtggctagcttaatg-cagTAAAGGAAAAAATGGGCACATTCCATTCAGAGATTCAAAGCTGACACGCATACTTCAGACTTCCTTGGGAGGAAACGCCAGAACTTCCATAATCTGCACA
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----ttcataaatttactgaatgcgtcgatataatcaatatttgatatagttttgggaaatattttttttcgattttatctaa--aaatgattaatttgatggcagTAAGGGGAGAAATGGACATATTCCTTTCAGAGATTCAAAGCTAACCCGCATACTGCAGTCCTCATTAGCAGGCAATGCTAAAACTGCAATCATCTGCACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catctaatgtttgcttctttttacattactgaattatgtggctagcttaatgcagTAAAGGAAAAAATGGGCACATTCCATTCAGAGATTCAAAGCTGACACGCATACTTCAGACTTCCTTGGGAGGAAACGCCAGAACTTCCATAATCTGCACA
ttctttttacatta TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagtaacgccagtttaccaagttattagcagattgctgttattaacatctaatgtttgcttctttttacattactgaattatgtggctagcttaatgcagTAAAGGAAAAAATGGGCACATTCCATTCAGAGATTCAAAGCTGACACGCATACTTCAGACTTCCTTGGGAGGAAACGCCAGAACTTCCATAATCTGCACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA